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GT-CONVERTSEQ(1) GenomeTools Manual GT-CONVERTSEQ(1)

NAME

gt-convertseq - Parse and convert sequence file formats (FASTA/FASTQ, GenBank, EMBL).

SYNOPSIS

gt convertseq [options] file [...]

DESCRIPTION

-v [yes|no]
be verbose (default: no)
-r [yes|no]
reverse complement sequences (default: no)
-showfilelengthvalues [yes|no]
show filelengths (default: no)
-noseq [yes|no]
do not show sequences (default: no)
-fastawidth [value]
FASTA output line width, 0 for unlimited (default: 60)
-contractdnawc [yes|no]
replace stretches of DNA wildcards with a single N (default: no)
-contractproteinwc [yes|no]
replace stretches of protein wildcards with a single X (default: no)
-o [filename]
redirect output to specified file (default: undefined)
-gzip [yes|no]
write gzip compressed output file (default: no)
-bzip2 [yes|no]
write bzip2 compressed output file (default: no)
-force [yes|no]
force writing to output file (default: no)
-help
display help and exit
-version
display version information and exit

REPORTING BUGS

Report bugs to <gt-users@genometools.org>.
07/29/2016 GenomeTools 1.5.9